# List of top-scoring protein chains for YGR035W-A.t2k-w0.5 hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1p47A 87 1.01e-01 g.37.1.1 87758 g.37.1.1 87759 g.37.1.1 87760 1zaaC 87 1.02e-01 1aayA g.37.1.1 45013 g.37.1.1 45014 g.37.1.1 45015 1aayA 90 1.03e-01 1aayA g.37.1.1 45001 g.37.1.1 45002 g.37.1.1 45003 1jk2A 90 1.05e-01 g.37.1.1 66787 g.37.1.1 66788 g.37.1.1 66789 1a1iA 90 1.08e-01 1aayA g.37.1.1 44998 g.37.1.1 44999 g.37.1.1 45000 1a1hA 90 1.12e-01 1aayA g.37.1.1 45004 g.37.1.1 45005 g.37.1.1 45006 1a1gA 90 1.13e-01 1aayA g.37.1.1 45010 g.37.1.1 45011 g.37.1.1 45012 1f2iG 73 2.78e-01 g.37.1.1 59613 g.37.1.1 59614 1g2dC 90 4.08e-01 k.12.1.1 60220 1g2fC 90 4.21e-01 k.12.1.1 60222 1llmC 88 9.29e-01 g.37.1.1 91059 g.37.1.1 91060 1x63A 82 2.04e+00 1x3hA 80 2.15e+00 1jnrB 150 2.31e+00 d.58.1.5 66969 1jfuA 186 3.56e+00 c.47.1.10 62940 1xxsA 122 4.32e+00 1hzdA 272 4.88e+00 c.14.1.3 65969 1k8iA 191 5.09e+00 b.1.1.2 68301 d.19.1.1 68302 1tfi 50 5.42e+00 1tfi g.41.3.1 45204 1xf7A 29 5.65e+00 1dbnA 239 6.05e+00 1led b.29.1.1 24155 1zcjA 463 6.30e+00 1pa0A 121 6.88e+00 a.133.1.2 104097 1pc9A 121 6.97e+00 a.133.1.2 104107 1tzpA 255 7.53e+00 d.65.1.3 107520 1yk3A 210 7.53e+00 2bs3B 239 1.00e+01 1uyjA 296 1.05e+01 f.8.1.2 108143 1udh 244 1.07e+01 3eugA c.18.1.1 31015 2c53A 244 1.11e+01 2ashA 381 1.23e+01 1sorA 235 1.25e+01 f.19.1.1 98955 1iznA 286 1.28e+01 e.43.1.1 83847 1pbyC 79 1.36e+01 a.137.9.1 94423 1iru2 219 1.48e+01 1q20A 299 1.54e+01 c.37.1.5 95616 1wf9A 107 1.58e+01 2cszA 76 1.60e+01 1a0hA 159 1.76e+01 1a0hA b.47.1.2 26229 g.14.1.1 44655 1ymgA 263 1.77e+01 1nypA 66 1.78e+01 g.39.1.3 86411 g.39.1.3 86412 2b6oA 263 1.94e+01 1x64A 89 1.96e+01 1y4lA 121 2.01e+01 1x4lA 72 2.04e+01 1yroA 123 2.09e+01 2b25A 336 2.10e+01 1h2oA 159 2.25e+01 d.129.3.1 90547 1xy7A 166 2.29e+01 1zfuA 40 2.29e+01 2bxwA 141 2.34e+01 1s8iA 121 2.45e+01 a.133.1.2 98735 1e09A 159 2.46e+01 1bv1 d.129.3.1 59146 1ppa 121 2.48e+01 1poa a.133.1.2 19550 1ryuA 120 2.49e+01 a.4.3.1 105127 1gl8A 104 2.49e+01 c.47.1.1 65290 1fb6A 105 2.51e+01 1thx c.47.1.1 32739 1fsoA 139 2.57e+01 1rhoA b.1.18.8 60007 1kmtA 141 2.69e+01 b.1.18.8 77442 1ft3A 139 2.75e+01 1rhoA b.1.18.8 60020 1t0lA 414 2.80e+01 c.77.1.1 106216 1ft0A 139 2.82e+01 1rhoA b.1.18.8 60018 1tc5A 194 2.86e+01 c.110.1.1 106752 1jmxG 79 2.91e+01 a.137.9.1 66907 1qvyA 139 2.91e+01 b.1.18.8 96449 2aw4Z 70 2.93e+01 1hcd 118 2.96e+01 1hce b.42.5.2 25624 1k1gA 131 3.03e+01 d.51.1.1 68015 1cqa 133 3.05e+01 3nul d.110.1.1 40890 1rhoA 145 3.10e+01 1rhoA b.1.18.8 21899 2aw2A 120 3.33e+01 1w0fA 485 3.37e+01 a.104.1.1 108987 1tqnA 486 3.37e+01 a.104.1.1 107238 1nmlA 326 3.37e+01 a.3.1.5 91976 a.3.1.5 91977 2cxhA 217 3.55e+01 1h1jS 51 3.56e+01 a.140.2.1 70850 1rkuA 206 3.56e+01 c.108.1.11 97627 2bl5A 140 3.57e+01 1ytvM 84 3.58e+01 1hn6A 110 3.61e+01 g.61.1.1 76721 1q1qA 350 3.61e+01 c.37.1.5 95599 1nciA 110 3.64e+01 1edhA b.1.6.1 22191 1mm2A 61 3.71e+01 g.50.1.2 85015 1jltA 122 3.74e+01 a.133.1.2 66867 2bsdA 264 3.76e+01 1exsA 160 3.81e+01 1bebA b.60.1.1 27125 1taq 832 3.83e+01 1taq a.60.7.1 18082 c.120.1.2 33352 c.55.3.5 33698 e.8.1.1 42991 1qllA 121 3.87e+01 1poa a.133.1.2 19556 5rxn 54 3.94e+01 1rb9 g.41.5.1 45225 1yc61 154 3.97e+01